Protein Help

SLD2 / YKL108W Protein

Protein abundance data, domains, shared domains with other proteins, protein sequence retrieval for various strains, sequence-based physico-chemical properties, protein modification sites, and external identifiers for the protein.


Aliases
DRC1 4
Feature Type
ORF , Verified
Summary
Relative distribution to the nucleus increases upon DNA replication stress

AlphaFold Protein Structure

AlphaFold, developed by DeepMind, is an AI program that accurately predicts protein structures from amino acid sequences, enabling visualization of protein conformations. The predicted structures can be accessed through the Protein Data Bank (PDB) and AlphaFold Protein Structure Database.


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Model Confidence

Very high
Confident
Low
Very low

Experimental Data

Contains experimentally-derived protein half-life data obtained using stable isotope labeling by amino acids (SILAC) coupled with mass spectrometry. This section also contains protein abundance data for both untreated and treated cells obtained from over 20 studies. These data have been normalized and converted to a common unit of molecules per cell.


Protein Half Life

No half-life data available for SLD2.

Protein Abundance

Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

Abundance (molecules/cell)MediaTreatmentTreatment timeFold ChangeVisualizationStrain backgroundOriginal ReferenceReference
3652SDuntreatedwide-field microscopy evidenceS288CDénervaud N, et al. (2013)Ho B, et al. (2018)
4593SD0.03% methyl methanesulfonate7 hrwide-field microscopy evidenceS288CDénervaud N, et al. (2013)Ho B, et al. (2018)
656YEPDuntreatedqualitative western immunoblotting evidenceS288CGhaemmaghami S, et al. (2003)Ho B, et al. (2018)
55YEPDuntreatedquantitative mass spectrometry evidenceS288CKulak NA, et al. (2014)Ho B, et al. (2018)
308SCuntreatedquantitative mass spectrometry evidenceS288CPeng M, et al. (2012)Ho B, et al. (2018)
Showing 1 to 5 of 5 entries

Domains and Classification - S288C

Collection of computationally identified domains and motifs, as determined by InterProScan analysis; includes protein coordinates for the domain, a domain Description, a Source and corresponding accession ID, and the number of S. cerevisiae genes that share the same domain.


Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

Gene Protein Coordinates Accession ID Description Source No. of Genes with Domain

Domain Locations

Visual representation of the locations of the domains within the protein, as listed in the Domains and Classification table. Each row displays the domain(s) derived from a different Source, with domains color-coded according to this Source.

Scroll over a domain to view its exact coordinates and its Description.

Shared Domains

This diagram displays domains (colored squares) shared between the given protein (yellow circle) and other proteins (gray circles); the domains are color-coded according to their source, as displayed in the Domain Locations table, above.

Reset

Click on a gene or domain name to go to its specific page within SGD; drag any of the gene or domain objects around within the visualization for easier viewing; click “Reset” to automatically redraw the diagram.

Alleles

Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.


sld2-5002 | sld2-6 | sld2-All-A | sld2-T84A | sld2-m1,4 | sld2-Δ

View all SLD2 alleles in SGD search

Sequence

Protein sequence for the given gene in S288C and other strains, when available. Use the pull-down menu under "Strain" to select the sequence for a specific strain. The displayed sequence can be downloaded in FASTA format as a .txt file. Amino acids displayed in blue represent modification sites. More detailed evidence for these modification sites is presented in the Post-translational Modifications table, located just below the protein sequence.


1 MYSFELDKLK IELKTWEHDF IDKNKREPTR DDIKSLRTVR QMYKQYSTLK KKQSLQRQKV
61 DTQESVELPA HKKDHDEVVE IGPTPQVYGK AISIFDMNLS PIKPIYMTFT NNIDVNNDNS
121 KTISNESSPR KTILLKSSPA DRTLVAEPIS SVKRQLNFQM LNASSTRTPT SSPCKNRNGK
181 LVEIKKCSPT INPPLESGKP SGYYGPNSPL KLDEENIHLN ISLNSSTKRR LQIAYPSLQK
241 TPSKDQADIS TSFSPSPLIR RPLTKSLIEL AREHTEIVKE FGVLQEEDIE EEEEGEEGEN
301 GYDEKNHEDD FGLEDELIRP KVVKDIFQED DDNDDSQARE DTFIRKRPKR RKVIRRLRDN
361 DPETETAGFE RDVHKELVKL KRRKVAEFLG STSQISDTEF EHDPEASSGV VSSEQKPTAK
421 RKGRKKYNLV SNNFRRLKLP KKNRFSNGRW GRR*

* Blue amino acids indicate modification sites. More information below.

Post-translational Modifications - S288C

Modification sites for the protein in the selected strain, based on the presence of a residue in the specific strain, as inferred from experimental evidence.

57 entries for 27 sites

Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

SiteModificationModifierReference
S3phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
K44phosphorylated residueCDC28Bruck I, et al. (2011) PMID: 21868389
K50phosphorylated residueCDC28Bruck I, et al. (2011) PMID: 21868389
T84phosphorylated residueLeutert M, et al. (2023) PMID: 37845410
T84phosphorylated residueSwaney DL, et al. (2013) PMID: 23749301
T84phosphorylated residuePirincci Ercan D, et al. (2021) PMID: 34088668
T84phosphorylated residueZhou X, et al. (2021) PMID: 33481703
Y88phosphorylated residueZhou X, et al. (2021) PMID: 33481703
S100phosphorylated residuePirincci Ercan D, et al. (2021) PMID: 34088668
S120phosphorylated residueLeutert M, et al. (2023) PMID: 37845410
Showing 1 to 10 of 57 entries

Sequence-Based Physico-chemical Properties - S288C

Calculated protein properties, including amino acid composition, length, coding region calculations, and atomic composition.

Amino Acid Composition

Sort table using the arrow to the right of a column header to sort by that column; download all properties as a .txt file using the "Download Properties" button.

Amino AcidFrequencyPercentage
A132.87
C20.44
D327.06
E439.49
F153.31
G173.75
H81.77
I275.96
K4810.60
L357.73
M51.10
N265.74
P286.18
Q173.75
R357.73
S439.49
T265.74
V214.64
W20.44
Y102.21

Physical Details

Length (a.a): 453
Molecular Weight (Da): 52280.5
Isoelectric Point (pl): 9.6
Formula: C2279H3695N667O726S7
Aliphatic Index: 65.65
Instability Index: 63.35

Coding Region Translation Calculations

Codon Bias: 0.04
Codon Adaptation Index: 0.13
Frequence of Optimal Codons: 0.46
Hydropathicity of Protein: -1.06
Aromaticity Score: 0.06

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 26025.0
NO Cys residues appear as half cystines: 25900.0

Atomic Composition

Sort table using the arrow to the right of a column header to sort by that column; download all properties as a .txt file using the "Download Properties" button.

Atom Frequency Percentage

Data not found or not available for  S288C

External Identifiers

List of external identifiers for the protein from various database sources.

19 entries for 9 sources


Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

External IDSource
orf19.2389CGD
5880DIP
CAA81948.1GenBank/EMBL/DDBJ
CAA50449.1GenBank/EMBL/DDBJ
6322741GenBank/EMBL/DDBJ
X71133GenBank/EMBL/DDBJ
Z28108GenBank/EMBL/DDBJ
465721GenBank/EMBL/DDBJ
486181GenBank/EMBL/DDBJ
431208GenBank/EMBL/DDBJ
Showing 1 to 10 of 19 entries

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